scDiffCom stands for “single-cell Differential Communication” and infers changes in intercellular communication between two biological conditions from scRNA-seq data (as Seurat objects). The package relies on an internal collection of ligand-receptor interactions (available for human, mouse and rat) retrieved from seven curated databases.
Display LRI databases
* CellChat * CellPhoneDB * CellTalkDB * connectomeDB2020 * ICELLNET * NicheNet * SingleCellSignalR
Installation
# Install the development version from GitHub
devtools::install_github("CyrilLagger/scDiffCom")
# Install release version from CRAN
install.packages("scDiffCom")Usage
As an introduction, please look at the documentation and this vignette.
For a concrete and large-scale project that used scDiffCom, please look at scagecom.org, our murine atlas of age-related changes in intercellular communication.
Citation
Please consider reading and citing our Nature Aging paper: here.